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LOC_001CJLJ.1
Download
Download FASTA
Download metadata TSV
Display Name: Taiwan/LOC_001CJLJ.1/2000-09
H. Y. Wang,
K. C. Tsao,
C. H. Hsieh,
L. M. Huang,
T. Y. Lin,
G. W. Chen,
S. R. Shih,
L. Y. Chang &
L.-Y. Chang
Sample details
Collection date
2000-09
Collection date (lower bound)
2000-09-01
Collection date (upper bound)
2000-09-30
Earliest release date
2010-12-11
Collection country
Taiwan
Isolate name
TW-4282-00
Data use terms
Data use terms
OPEN
✕
Data use terms history
Changed
User
Data use terms
2025-12-05 17:46
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://#TODO-MVP/open
Authors
Author affiliations
National Taiwan University and Hospital, Department of Pediatrics
INSDC
NCBI release date
2010-12-11
NCBI update date
2016-07-25
INSDC accession
HQ283541.1
Host
Host taxon id
9606
Host name scientific
Homo sapiens
Alignment and QC metrics
Length
2736
Total SNPs
691
Total inserted nucs
102
Total deleted nucs
1562
Total ambiguous nucs
0
Total unknown nucs
236
Total frame shifts
6
Frame shifts
[{'cdsName': 'VP3', 'nucRel': {'begin': 125, 'end': 138}, 'nucAbs': [{'begin': 1837, 'end': 1850}], 'codon': {'begin': 42, 'end': 46}, 'gapsLeading': {'begin': 41, 'end': 42}, 'gapsTrailing': {'begin': 46, 'end': 47}}, {'cdsName': 'VP3', 'nucRel': {'begin': 214, 'end': 255}, 'nucAbs': [{'begin': 1926, 'end': 1967}], 'codon': {'begin': 72, 'end': 85}, 'gapsLeading': {'begin': 71,...
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Completeness
53.46%
Stop codons
[{'cdsName': 'VP3', 'codon': 156}]
Total stop codons
1
Submission details
Submission ID
HQ283541.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-12-05 17:46:11 UTC
Date released
2025-12-05 18:10:17 UTC
Clade
Clade EV-A71
A
Genotype
Genotype
EV-A71
Files
Annotations
LOC_001CJLJ.1.embl
Nucleotide mutations
Mutations called relative to the
U22521.1
reference
Substitutions
T
1742
C
A
1744
G
T
1745
C
G
1748
T
T
1749
G
A
1754
G
C
1756
T
C
1759
A
G
1761
C
T
1763
C
G
1764
T
A
1765
T
T
1766
C
G
1767
T
G
1770
T
G
1772
C
T
1773
C
A
1775
C
Show more
Deletions
1788-1790, 1836, 1837, 1851, 1926, 1968, 1969, 1986-1999, 2007-2009, 2019, 2034-2040, 2070, 2148-2153, 2274, 2275, 2295-2303, 2436, 2871, 3879-5386
Insertions
ins_2090:CG, ins_3293:CCGACCGGCACTAGTCGTACTGCCATTACTACCCTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
Amino acid mutations
Mutations called relative to the
U22521.1
reference
Substitutions
2A
2A:
T
26
N
2A:
T
52
I
2A:
N
57
D
2A:
R
68
K
2A:
Y
72
F
2A:
V
82
I
2A:
F
83
Y
2A:
E
102
A
2A:
S
129
N
3C
3C:
A
18
V
3C:
I
36
V
3C:
I
54
V
3C:
V
56
I
3C:
T
79
I
3C:
C
89
F
3C:
V
93
T
3C:
T
95
S
3C:
I
109
M
3C:
P
144
A
3C:
I
158
V
3C:
A
169
G
3C:
E
182
V
VP1
VP1:
K
18
R
VP1:
P
22
Q
VP1:
P
30
Q
VP1:
D
31
N
VP1:
K
43
E
VP1:
A
58
T
VP1:
K
98
E
VP3
VP3:
N
27
S
VP3:
F
28
H
VP3:
H
29
V
VP3:
P
30
L
VP3:
T
31
I
VP3:
P
32
K
VP3:
C
33
H
VP3:
I
34
F
VP3:
H
35
C
VP3:
I
36
F
VP3:
E
39
P
VP3:
V
40
S
VP3:
R
41
I
VP3:
Q
48
L
VP3:
V
49
K
VP3:
T
51
K
VP3:
I
52
A
VP3:
T
60
V
Show more
Deletions
VP1:145, VP3:42, VP3:47, VP3:53-58, VP3:72, VP3:86, VP3:92-96, VP3:103, VP3:108-110, VP3:188
Insertions
ins_VP1:262:XXXXXXXXXXXXXXXXXXXXXXXRPALVVLPLL, ins_VP3:86:I, ins_VP3:154:S, ins_VP3:167:WVS, ins_VP3:186:I*LL
Nucleotide sequence
Aligned nucleotide sequence
Aligned amino acid sequences
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